/***************************************************************************
 *   Copyright (C) 2007 by Alexandre Masselot,,,   *
 *   alex@alex-laptop   *
 *                                                                         *
 *   This program is free software; you can redistribute it and/or modify  *
 *   it under the terms of the GNU Library General Public License as       *
 *   published by the Free Software Foundation; either version 2 of the    *
 *   License, or (at your option) any later version.                       *
 *                                                                         *
 *   This program is distributed in the hope that it will be useful,       *
 *   but WITHOUT ANY WARRANTY; without even the implied warranty of        *
 *   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the         *
 *   GNU General Public License for more details.                          *
 *                                                                         *
 *   You should have received a copy of the GNU Library General Public     *
 *   License along with this program; if not, write to the                 *
 *   Free Software Foundation, Inc.,                                       *
 *   59 Temple Place - Suite 330, Boston, MA  02111-1307, USA.             *
 ***************************************************************************/
#ifndef BOLCHARGEMAPPER_H
#define BOLCHARGEMAPPER_H

#include <vector>
#include <limits.h>
#include "peak.h"


namespace bol {

/**
just a class that, for a given charge returns the closest charge defined by a PChargeMask (for example, if a PChargeMask of 2+ OR 3+ is, set, 1->2, 5->2)

	@author Alexandre Masselot,GeneBio,http://www.genebio.com, <alexandre.masselot@gmail.com>
*/
class ChargeMapper : public vector<unsigned int>
{
private:
  Pchargemask m_charges;
public:
    ChargeMapper();

    ~ChargeMapper();

    /**
     * set the charge on which the charge will be projected
     * @param msk 
     */
    void setCharges(Pchargemask msk);

    /**
     * set the charge mask on which the charge will be projected, frmo a string (2+ and 3+)
     * @param msk
     */
    void setCharges(const string msk){
      setCharges(Peak::string2chargemask(msk));
    }

    void addCharge(const unsigned int c){
      assert((c>0)&&(c<(CHAR_BIT*sizeof(Pchargemask))));
      setCharges(m_charges | (1<<c));
    }
    friend ostream& operator<<(ostream& out, ChargeMapper cm);


  Pchargemask charges() const {
      return m_charges;
  }
};

}

#endif
